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Sample GSM1504993 Query DataSets for GSM1504993
Status Public on Sep 17, 2014
Title Liver_77
Sample type genomic
Source name severely obese patient_liver
Organism Homo sapiens
Characteristics subject status: severely obese patient
subject age: 58
gender: male
bmi: 39.126
tissue: liver
Extracted molecule genomic DNA
Extraction protocol genomic DNA was extracted and purified from liver samples using the AllPrep DNA/RNA/Protein Mini kit (QIAgen, Hilden, Germany) according to standard instructions
Label Cy5 and Cy3
Label protocol Standard Illumina Protocol
Hybridization protocol bisulphite converted DNA was amplified, fragmented and hybridised to Illumina Infinium Human Methylation450K Beadchip using standard Illumina protocol
Scan protocol Arrays were imaged using HiScan Reader using standard recommended Illumina scanner setting
Description Liver sample of Morbidly patient
Data processing SWAN Normalization and M-value transformation, using minfi (v.1.8.9) and R (v.3.0.2)
Submission date Sep 16, 2014
Last update date Sep 17, 2014
Contact name Lude Franke
Organization name UMCG
Department Genetics
Street address Hanzeplein 1
City Groningen
State/province Please Select
ZIP/Postal code 9713 GZ
Country Netherlands
Platform ID GPL13534
Series (2)
GSE61446 Epigenome analysis of the human liver
GSE61454 DNA methylation from severely obese samples in liver, muscle, visceral adipose tissue and subcutaneous adipose samples

Data table header descriptions
VALUE SWAN Normalized M-value

Data table
cg00001349 0.535758001
cg00001583 0.056654833
cg00002028 0.055096101
cg00002719 0.220268022
cg00002837 0.502465643
cg00003202 0.04446595
cg00003287 0.114279456
cg00007036 0.94944632
cg00007898 0.043741615
cg00008004 0.118851439
cg00008647 0.087232812
cg00009292 0.120200936
cg00011717 0.889481135
cg00014168 0.454968147
cg00015286 0.771725616
cg00016238 0.626768156
cg00017221 0.060094527
cg00017437 0.082094748
cg00021123 0.835926931
cg00021576 0.072645319

Total number of rows: 399654

Table truncated, full table size 8943 Kbytes.

Supplementary file Size Download File type/resource
GSM1504993_5822943028_R04C02_Grn.idat.gz 4.1 Mb (ftp)(http) IDAT
GSM1504993_5822943028_R04C02_Red.idat.gz 4.1 Mb (ftp)(http) IDAT
Processed data included within Sample table

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